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Table 1 Detailed results of isolation of PIPs gene fragments

From: Aquaporins in the wild: natural genetic diversity and selective pressure in the PIP gene family in five Neotropical tree species

   

Universal primer-generated sequences

Specific-primer generated sequences

Family

Genus

species

NT

Contigs

NC

TAIR

PIP subfamily

LC (bp)

Genbank

PCR Amplification

N

L (bp)

Meliaceae

Carapa

guianensis

46

CguContig1

11

NP_194071

PIP1

780

FJ709600

YES

70

673

    

CguContig2

10

NP_200874

PIP2

782

FJ709601

Not tested

-

-

    

CguContig3

6

NP_001078066

PIP1

747

FJ709602

Not tested

-

-

Bombacaceae

Pachira

quinata

46

PquContig1

16

NP_200874

PIP2

804

FJ709598

YES

32

513

    

PquContig2

10

NP_195236

PIP2

628

FJ709599

NO

-

-

Myristicaceae

Virola

sebifera

22

VseContig1

22

NP_195236

PIP2

902

FJ807641

YES

46

627

Fabaceae

Eperua

falcata

96

EfaContig1

39

NP_182120

PIP1

484

FJ807642

YES

154

459

    

EfaContig2

9

NP_181254

PIP2

485

FJ807643

NO

-

-

    

EfaContig3

5

NP_181254

PIP2

554

FJ807644

NO

-

-

    

EfaContig4

4

NP_200874

PIP2

553

FJ807645

YES

166

572

    

EfaContig5

2

NP_171668

PIP1

545

FJ807646

YES

206

521

  1. Legend: NT: number of sequenced PCR fragments amplified using universal degenerate primers; Contigs: CodonCodeAligner-generated contigs (putatively corresponding to separate genes, for each of which specific primers were designed); NC: number of sequences per contig; TAIR: closest BlastX match from the TAIR database; PIP subfamily: subfamily to which belongs the best TAIR match; LC : length of contig alignments; Genbank: Genbank/EMBL accession numbers; PCR amplification: presence/absence of a single PCR product using specific primers (YES = successful PCR, single PRC product; NO = multiple or no PCR products; not tested = primer pairs were developed but not used for the present study); L: length (bp) of the specific primer-generated PCR products